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http://purl.bioontology.org/ontology/PHYLONT
Ontology for Phylogenetic Analysis
Proper citation: Phylogenetic Ontology (RRID:SCR_000912) Copy
http://purl.bioontology.org/ontology/ATO
A taxonomy of Amphibia
Proper citation: Amphibian Taxonomy Ontology (RRID:SCR_000906) Copy
http://purl.bioontology.org/ontology/PATHLEX
A comprehensive lexicon - a unified language of anatomic pathology terms - for standardized indexing and retrieval of anatomic pathology information resources.
Proper citation: Anatomic Pathology Lexicon (RRID:SCR_000907) Copy
http://purl.bioontology.org/ontology/HIV
Ontology that encompasses all knowledge about HIV
Proper citation: HIV ontology (RRID:SCR_000908) Copy
http://purl.bioontology.org/ontology/BHO
An application ontology devoted to the standardized recording of phenotypic data related to hemorrhagic disorders.
Proper citation: Bleeding History Phenotype Ontology (RRID:SCR_001165) Copy
http://purl.bioontology.org/ontology/ICD11-BODYSYSTEM
Ontology of a set of body-system terms used in the ICD (International Classification of Diseases) 11 revision
Proper citation: Body System Terms from ICD11 (RRID:SCR_001252) Copy
https://github.com/obophenotype/porifera-ontology
An ontology covering the anatomy of Porifera (sponges).
Proper citation: Porifera Ontology (RRID:SCR_000134) Copy
http://purl.bioontology.org/ontology/TEO
Ontology for representing events, time, and their relationships.
Proper citation: Time Event Ontology (RRID:SCR_000310) Copy
http://purl.bioontology.org/ontology/VARIO
An ontology for standardized, systematic description of effects, consequences and mechanisms of variations.
Proper citation: Variation Ontology (RRID:SCR_000311) Copy
http://purl.bioontology.org/ontology/SEDI
An ontology for DICOM as used in the SeDI project.
Proper citation: Semantic DICOM Ontology (RRID:SCR_000309) Copy
http://purl.bioontology.org/ontology/DOID
Comprehensive hierarchical controlled vocabulary for human disease representation.Open source ontology for integration of biomedical data associated with human disease. Disease Ontology database represents comprehensive knowledge base of inherited, developmental and acquired human diseases.
Proper citation: Human Disease Ontology (RRID:SCR_000476) Copy
http://purl.bioontology.org/ontology/GAZ
THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 23, 2014. Description not available.
Proper citation: Gazetteer (RRID:SCR_000473) Copy
http://bioportal.bioontology.org/annotator
A Web service that annotates textual metadata (e.g. journal abstract) with relevant ontology concepts. NCBO uses this Web service to annotate resources in the NCBO Resource Index. They also provide this Web service as a stand-alone service for users. This Web service can be accessed through BioPortal or used directly in your software. Currently, the annotation workflow is based on syntactic concept recognition (using concept names and synonyms) and on a set of semantic expansion algorithms that leverage the semantics in ontologies (e.g., is_a relations). Their service methodology leverages ontologies to create annotations of raw text and returns them using semantic web standards.
Proper citation: NCBO Annotator (RRID:SCR_005329) Copy
http://purl.bioontology.org/ontology/CABRO
A web ontology for the semantic representation of the computer assisted brain trauma rehabilitation domain. This is a novel and emerging domain, since it employs the use of robotic devices, adaptation software and machine learning to facilitate interactive, adaptive and personalized rehabilitation care, patient monitoring and assisted living.
Proper citation: Computer Assisted Brain Injury Rehabilitation Ontology (RRID:SCR_005288) Copy
Mark Musen''s laboratory studies components for building knowledge-based systems, controlled terminologies and ontologies, and technology for the Semantic Web. For more than two decades, Musen''s group has worked to elucidate reusable building blocks of intelligent systems, and to develop scalable computational architectures for systems with significant applications in biomedicine. Informatics is the study of information: its structure, its communication, and its use. As society becomes increasingly information intensive, the need to understand, create, and apply new methods for modeling, managing, and acquiring information has never been greater especially in biomedicine. BMIR is home to world class scientists and trainees developing cutting-edge ways to acquire, represent, process, and manage knowledge and data related to health, health care, and the biomedical sciences. Our faculty, students, and staff are committed to ensuring the biomedical community is properly equipped for the information age, and believe our efforts will provide the structure for the burgeoning revolution of health care and the biomedical sciences.
Proper citation: Stanford Center for Biomedical Informatics Research (RRID:SCR_005698) Copy
A community-driven ontology that is developed to standardize and integrate cell line information and support computer-assisted reasoning. Its focus is on permanent cell lines from culture collections. Upper ontology structures that frame the skeleton of CLO include Basic Formal Ontology and Relation Ontology. Cell lines contained in CLO are associated with terms from other ontologies such as Cell Type Ontology, NCBI Taxonomy, and Ontology for Biomedical Investigation. A common design pattern for the cell line is used to model cell lines and their attributes, the Jurkat cell line provides ane xample. Currently CLO contains over 36,000 cell line entries obtained from ATCC, HyperCLDB, Coriell, and bymanual curation. The cell lines are derived from 194 cell types, 656 anatomical entries, and 217 organisms. The OWL-based CLO is machine-readable and can be used in various applications. The CLO development has become a community effort with international collaborations. The development consortium includes experts from all over the world: the USA, Europe, and Japan.
Proper citation: Cell Line Ontology (RRID:SCR_005840) Copy
http://purl.bioontology.org/ontology/RCD
Ontology of clinical terms Version 3 (CTV3) (Read Codes) (Q199): National Health Service National Coding and Classification Centre
Proper citation: Read Codes Clinical Terms Version 3 (RRID:SCR_006055) Copy
http://purl.bioontology.org/ontology/RCTONT
Ontology specifically for Randomized Controlled Trials in order to facilitate the production of systematic reviews and metaanalysis.
Proper citation: Randomized Controlled Trials Ontology (RRID:SCR_005992) Copy
http://purl.bioontology.org/ontology/RETO
An application ontology for the domain of gene transcription regulation. The ontology integrates fragments of GO and MI with data from GOA, IntAct, UniProt, NCBI, KEGG and orthology relations.
Proper citation: Regulation of Transcription Ontology (RRID:SCR_006238) Copy
An ontology for the description of biological and clinical investigations built with international, collaborative effort. The ontology represents the design of an investigation, the protocols and instrumentation used, the material used, the data generated and the type analysis performed on it. This includes a set of universal terms that are applicable across various biological and technological domains, and domain-specific terms relevant only to a given domain. Currently OBI is being built under the Basic Formal Ontology (BFO). This project was formerly titled the Functional Genomics Investigation Ontology (FuGO) project.
Proper citation: Ontology for Biomedical Investigations (RRID:SCR_006266) Copy
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Welcome to the Neuroscience Information Framework Project, designed to serve the biomedical research community. NIF maintains the largest searchable collection of neuroscience data, the largest catalog of biomedical resources, and the largest ontology for neuroscience on the web. We welcome all feedback and suggestions and are actively looking for resource providers to make their resources accessible through NIF. Learn about the tools available to help you share your data and discover a dynamic inventory of Web-based neuroscience resources.
